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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTGCAGTTCACATGGCTGCTGAGGCTGCTAATCCATACTTCAGACTCGGTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaaaagtgatccaagcataaccttttcacccttgctcatctaagatgtttgttctgattgttttggtggtgattgtttttggaaacag

Basic information

species Arabidopsis thaliana
transcript AT4G26850.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G26850.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os01g67520.2 (Oryza sativa), 5'ss of exon 3
GCTTGCAGTTCACATGGCTGCTGAGGCTGCTAATCCATACTTCAGACTCGGTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaaaagtgatccaagcataaccttttcacccttgctcatctaagatgtttgttctgattgttttggtggtgattgtttttggaaacag
 |||||  |  |  | ||   ||| ||     |||||| ||||||| | |||||||||||  |||||| ||| || |||||||||||||||||||| |||||           || ||    |||||| ||||| |   | || |    | ||  || || |||| ||  || || |||     ||       ||
ACTTGCCATGTATGTTGCAAGTGAAGCAAAGGATCCATTCTTCAGAGTTGGTTACAACAGTCTGGGTGGTTTCGCAACTATCAATCATCTCCACTTCCAGgt-----------tggtcatgtcataactttttcccgtgtcctaactctaaat--ttcttatgat-gtcctgctgttgac-acattaattcgtag

upper sequence: AT4G26850.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA02G46230.1 (Glycine max), 5'ss of exon 5
GCTTGCAGTTCACATGGCTGCTGAGGCTGCTAATCCATACTTCAGACTCGGTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaaaagtgatccaagcataaccttttcacccttgctcatctaagatgtttgttctgattgttttggtggtgatt----gtttttggaaacag
 |||||| |||| ||||| |  || || | |||||| || ||  || | |||||||||||||||||||||||||| |||||||| ||||| ||||| ||||||  |  | |    ||   | ||  |     |||   ||| | ||    | |||||  |   |    | || | |  |||    | ||||| |     
CCTTGCACTTCAGATGGCAGTGGAAGCCGATAATCCTTATTTTCGATTGGGTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgtac-tggatactgaattataccactaataggtcatg-ttgatgattcc-gttgtttaattctacaaatctgattgcaatttggtgattttgcag----

upper sequence: AT4G26850.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G43200.1 (Glycine max), 5'ss of exon 6
GCTTGCAGTTCACATGGCTGCTGAGGCTGCTAATCCATACTTCAGACTCGGTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaaaagtgatccaagcataaccttttcacccttgc-tcatctaagatgtttgttctgattgttttggtggtgattgtttttggaaacag-------------------------------------
||||||| |||| ||||| ||||| |||   |||||||| || ||  | |||||||||||||||||||| ||||| || || || ||||||||||||||||||    ||  |   ||| |  |   | |  | ||        |  | || | || || ||  | |||||    |  | ||    | |   | |||                                     
GCTTGCACTTCAAATGGCCGCTGAAGCTAGGAATCCATATTTTAGGTTGGGTTACAACAGCTTGGGTGCATTTGCAACCATTAACCATCTCCACTTTCAGgtacg--cattaccaatcaactcgagatcactgcaatgcaatattctttatgttgattattg-gcttgttagaatccttatctagtgttctagcagtattcaaattgacattttttgattttgacgaactcag

upper sequence: AT4G26850.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G10430.1 (Glycine max), 5'ss of exon 5
GCTTGCAGTTCACATGGCTGCTGAGGCTGCTAATCCATACTTCAGACTCGGTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtat--atccaaaagtgatccaagcataac-cttttcacccttgctcatctaagatgtttgttctgattgttttggtggtg-attgtttttggaaacag-------------------------
||||||| |||| ||||| | ||| ||    |||||||| || ||  | |||||||||||||||||||| ||||| || || || ||||||||||||||||||   ||     |   |  | ||   |   |  | |||  ||  |||| |    | || | | || |||  || ||| |  |    | ||  ||                             
GCTTGCACTTCAAATGGCAGTTGAAGCAAGGAATCCATATTTTAGGTTGGGTTACAACAGCTTGGGTGCATTTGCAACCATTAACCATCTCCACTTTCAGgtactcattactgatcaactcgagatcactgcaatgcactattcttcatgttgattattggct-tgtttgaattagtgttctagcagtattcaaattgacattttgtgattttgacaaacccag

upper sequence: AT4G26850.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA14G02500.1 (Glycine max), 5'ss of exon 5
GCTTGCAGTTCACATGGCTGCTGAGGCTGCTAATCCATACTTCAGACTCGGTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtat---atccaaaagtgatcca---agcataaccttttcacccttgc-tcatctaagatgtttgttctgattgt--tttggtggtgattgtttttggaaacag----
 |||||| |||||||||| |  || |||| ||||||||| ||  || | ||||||||||| |||||||||||||| || || || ||||| ||||| ||||||    || | ||| |   |||   |  |   | | || |   || | |  | |||         |||||| |   ||||||| |  | |  |    | | |     
CCTTGCACTTCACATGGCAGTGGAAGCTGATAATCCATATTTTCGATTGGGTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatgctaaattataccacttaatagttcatgttgatgattccgttgtttaattctacaaatctgatcgcaatttggtgattttggcatgaatatatatgcag

upper sequence: AT4G26850.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv19s0090g01000.t01 (Vitis vinifera), 5'ss of exon 5
GCTTGCAGTTCACATGGCTGCTGAGGCTGCTAATCCATACTTCAGACTCGGTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaaaagtgatcc---aagcataaccttttcacccttgc-tcatctaagatgtttgttctgat-tgttttggtggtgattgtttttggaaacag
||||||  || |||||||||  || || |  |||||||| ||| |  | |||||||||||||||||||| ||||| || ||||| || || ||||||||||| | |    |  | | |    ||    || | ||  ||  |    |   ||    || ||  |   || ||  ||     | | | ||  ||| |||||
GCTTGCCCTTGACATGGCTGTGGAAGCAGGAAATCCATATTTCCGGTTGGGTTACAACAGCTTGGGTGCATTTGCTACCATCAACCACCTTCACTTTCAGgtttctttccacctcacctttgaactgcaatcattgtactataaaattggctccattggttaatgaaatatgaatt--ccataact-ttcatggtaacag

upper sequence: AT4G26850.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S9_179V6.1 (Physcomitrella patens), 5'ss of exon 5
GCTTGCAGTTCACATGGCTGCTGAGGCTGCTAATCCATACTTCAGACTCGGTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgta---tatccaaaagtgatccaagcataaccttttcaccct--tgctcatctaagatgtttgttctgattgttttggtggtgattgtttttggaaacag
 || ||  | |||||||||||||||||    ||||| || ||| | || |||||||||||||||||||| |||||||| ||||| ||  | || || ||||||   ||        ||   || |   |  ||  |  | ||   |||||    |  |   |||    ||||  ||    |   |   |   |   | ||
ACTGGCTTTGCACATGGCTGCTGAGGCAAACAATCCGTATTTCCGCCTAGGTTACAACAGCTTGGGTGCATTTGCCACAATCAACCACTTGCATTTCCAGgtagagtacatgcccatgtagcaggttaagtctgctgtctctgacgctcaagctaattacgtgtagcaattgcgttcaaagaagtcaatgccgttgagag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|124917603|gb|EH991477.1|EH991477
EST:     GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTT
genomic: GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTT
EST: gi|125283640|gb|EL297725.1|EL297725
EST:     GGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
genomic: GGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
EST: gi|124902353|gb|EH976433.1|EH976433
EST:     GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAG
genomic: GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAG
EST: gi|125110072|gb|EL162212.1|EL162212
EST:     CACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
genomic: CACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
EST: gi|86058721|gb|DR354478.1|DR354478
EST:     GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
genomic: GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
EST: gi|164050106|gb|ES168153.1|ES168153
EST:     GCTTTTGCCACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
genomic: GCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
EST: gi|124961548|gb|EL036067.1|EL036067
EST:     GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTTTCCCA
genomic: GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTTTCCCA
EST: gi|125228729|gb|EL242814.1|EL242814
EST:     TTTGCCACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
genomic: TTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
EST: gi|86058720|gb|DR354477.1|DR354477
EST:     GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
genomic: GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
EST: gi|125309867|gb|EL323952.1|EL323952
EST:     GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTAC
genomic: GTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTAC
EST: gi|125040078|gb|EL112347.1|EL112347
EST:     TGCTTTTGCCACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
genomic: TGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
EST: gi|124952291|gb|EL027574.1|EL027574
EST:     CCACTATCAATCATCTCCACTTTCAG                         GCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG
genomic: CCACTATCAATCATCTCCACTTTCAGgtatatccaa ... ttggaaacagGCTTATTACTTGGCCATGCCTTTCCCACTGGAGAAAGCTCCTACCAAGAAG